From 4c89140f21f217d8100a4e5189cad0246223f150 Mon Sep 17 00:00:00 2001
From: ebanks <ebanks@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Fri, 18 Sep 2009 18:17:13 +0000
Subject: [PATCH] quick fix

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1655 348d0f76-0448-11de-a6fe-93d51630548a
---
 perl/1kgScripts/runPilot2Pipeline.pl | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/perl/1kgScripts/runPilot2Pipeline.pl b/perl/1kgScripts/runPilot2Pipeline.pl
index b1f5cebdc..22dab9568 100755
--- a/perl/1kgScripts/runPilot2Pipeline.pl
+++ b/perl/1kgScripts/runPilot2Pipeline.pl
@@ -97,7 +97,7 @@ sub call {
     my $doc = $_[8];
     my $mq = $_[9];
 
-    my $cmd = "perl $sting/perl/1kgScripts/runCallingPipeline.pl -i $inputBams -o $outputHead -q $queue -snps -sting $sting -sample $sample -badsnps $badsnps -doc $doc -mq $mq";
+    my $cmd = "perl $sting/perl/1kgScripts/runCallingPipeline.pl -i \"$inputBams\" -o $outputHead -q $queue -snps -sting $sting -sample $sample -badsnps $badsnps -doc $doc -mq $mq";
     if ($dry) {
 	$cmd .= " -dry";
     }